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My design changed partway through. How do I write that?

Honestly, and it is more common than you would think. Explain what changed, why, and what it means for your findings. Examiners deal with this constantly and respond well to a clear account. What they respond badly to is a chapter describing a study that visibly did not happen that way.

This comes up on Methodology Chapter Support, where it is answered in the context of the work itself.

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